Sunday, September 18, 2011

Do-It-Yourself Dodecad v 2.1

files that do not include all expected SNP markers used in a calculator. This

is useful to individuals having older genotype files from their testing

companies, and allows the tool to be used with any type of genotype data, and

not only the Illumina platforms currently used by 23andMe and FamilyTreeDNA.

There is a minimum requirement of at least 100 usable SNPs, i.e., SNPs that are

in the genotype file and do not have no-calls.

If you had previously followed the instructions carefully, and got an "end of file reached" error, this was most likely due to your genotype file lacking some of the expected markers used in the calculator. Version 2.1 should work for you.

You can download it from here (Google Docs, File->Download Original), or here (Sendspace). Uncompress DIYDodecad2.1.rar to a local directory on your computer, and follow the instructions in the README.txt file.

19 comments:

I tried to download the Windows executable file using IE6 & Firefox and got a 404 file not found error message. The README.TXT came down OK. Also there is no DIYDodecad2.1.rar file on the GoogleDocs link??

I am having a problem getting of the ground.I have downloaded R and installed it and have opened Dodecad and placed it in a folder in my C drive under windows XP.R is in C:/Programme files/R/R-2.13.1Dodecad is in C:/diydodecode/twopointone/ and includes standardize.r

When I open R and put in setwd('/C/diydodecode/twopointone’) enter I get> setwd('/C/diydodecode/twopointone’)+ which I don't think is correct because if I then add at the cursor after the + source('standardize.r')and enter

The other alternatives I have used to setwd aresetwd('C:/diydodecode/twopointone’)setwd('/diydodecode/twopointone’)setwd('c/diydodecode/twopointone’)setwd('/c:/diydodecode/twopointone’)all with the same result

I have a problem with Mac Os X but I want to check my data (23andme)Please make EuroCal and this program Web based so everybody could use those programs by temporary uploading raw data and checking. Raw data will be automatically deleted (or not deleted, it is up to you or user) later on Thank You it is great program Dodecad v3

I have raw 23andMe Data, I went through R and standardized the genotype.txt, and when I go and open up DIYDodecad dv3.par in the Windows Command prompt, I get two things: "166,642 SNPs Absent", out of 166,642 total SNPs and I get "Fewer than 100 useable SNPs"

I am so confused -- and on many various things regarding my DNA results.

Thank you for creating this wonderful site. It is very enjoyable and informative.

I have a a raw data file recently released by AncestryDNA. The layout is similar, but there are differences between 23andMe and A-DNA. I did a test standardization run that produced results much different from A-DNA in DV3 and K12b, but DV3 and K12b are consistent with census data, newspaper articles, and family lore.

Do you think the standardizing process is compatible with Ancestry's raw data? I have the results below.

I'm also having trouble getting off the ground. I think I successfully changed the working directory, but when I enter source('standardize.r') I get:Error in file(filename, "r", encoding = encoding) : cannot open the connectionIn addition: Warning message:In file(filename, "r", encoding = encoding) : cannot open file 'standardize.r': No such file or directory

And then from there I'm thoroughly confused. Sorry, programs with command input aren't my forte!

Useful software

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